Incorrect filter group OR behavior, LEFT JOIN changed to INNER JOIN

I have a view, in code, which uses two groups of ANDed filters, with group behaviour OR. Since updating to views 3.5 (from 3.3+173-dev), the filter OR no longer works correctly - I am getting only the nodes that match the second filter group, not nodes that match either group. There is nothing very special about the filters, which operate on node type, status, nid and taxonomy terms. Aggregation is enabled.

I am pulling values from view arguments and supplying those to the filters in hook_views_query_alter(), but if I disable that and use static filter values in the view the OR still fails as above, so I don't think that is the problem.

The relevant query in 3.3 used a LEFT JOIN, this has changed to INNER JOIN in 3.5. See the second join in each query below.

7.x-3.3+173-dev:

SELECT DISTINCT node.title AS node_title, node.nid AS nid, COUNT(field_data_field_related_article.field_related_article_tid) AS field_data_field_related_article_field_related_article_tid, COUNT(field_data_field_related_article.delta) AS field_data_field_related_article_delta, COUNT(field_data_field_related_article.language) AS field_data_field_related_article_language, COUNT(field_data_field_related_article.bundle) AS field_data_field_related_article_bundle
FROM 
{node} node
INNER JOIN {field_data_field_related_article} field_data_field_related_article ON node.nid = field_data_field_related_article.entity_id AND (field_data_field_related_article.entity_type = 'node' AND field_data_field_related_article.deleted = '0')
LEFT JOIN {field_data_field_related_delivery} field_data_field_related_delivery ON node.nid = field_data_field_related_delivery.entity_id AND (field_data_field_related_delivery.entity_type = 'node' AND field_data_field_related_delivery.deleted = '0')
INNER JOIN {node_access} na ON na.nid = node.nid
WHERE (( (node.status = '1') AND (node.type IN  ('article', 'programme')) AND (node.nid != '68') AND (field_data_field_related_article.field_related_article_tid IN  ('54')) )OR( (node.status = '1') AND (node.type IN  ('article', 'programme')) AND (node.nid != '68') AND (field_data_field_related_delivery.field_related_delivery_value IN  ('distance')) ))AND(( (na.gid = '0') AND (na.realm = 'all') )OR( (na.gid = '0') AND (na.realm = 'domain_site') )OR( (na.gid = '3') AND (na.realm = 'domain_id') ))AND (na.grant_view >= '1') 
GROUP BY node_title, nid
ORDER BY node_title ASC

7.x-3.5:

SELECT DISTINCT node.title AS node_title, node.nid AS nid, COUNT(field_data_field_related_article.field_related_article_tid) AS field_data_field_related_article_field_related_article_tid, COUNT(field_data_field_related_article.delta) AS field_data_field_related_article_delta, COUNT(field_data_field_related_article.language) AS field_data_field_related_article_language, COUNT(field_data_field_related_article.bundle) AS field_data_field_related_article_bundle
FROM 
{node} node
INNER JOIN {field_data_field_related_article} field_data_field_related_article ON node.nid = field_data_field_related_article.entity_id AND (field_data_field_related_article.entity_type = 'node' AND field_data_field_related_article.deleted = '0')
INNER JOIN {field_data_field_related_delivery} field_data_field_related_delivery ON node.nid = field_data_field_related_delivery.entity_id AND (field_data_field_related_delivery.entity_type = 'node' AND field_data_field_related_delivery.deleted = '0')
INNER JOIN {node_access} na ON na.nid = node.nid
WHERE (( (node.status = '1') AND (node.type IN  ('article', 'programme')) AND (node.nid != '68') AND (field_data_field_related_article.field_related_article_tid IN  ('54')) )OR( (node.status = '1') AND (node.type IN  ('article', 'programme')) AND (node.nid != '68') AND (field_data_field_related_delivery.field_related_delivery_value IN  ('distance')) ))AND(( (na.gid = '0') AND (na.realm = 'all') )OR( (na.gid = '0') AND (na.realm = 'domain_site') )OR( (na.gid = '3') AND (na.realm = 'domain_id') ))AND (na.grant_view >= '1') 
GROUP BY node_title, nid
ORDER BY node_title ASC